[SocBiN] Fwd: Two bioinformaticians needed to the Clinical Sequencing Facility in Uppsala

[Ola Spjuth]

Begin forwarded message:

From: Rung Johan <johan.rung at scilifelab.uu.se<mailto:johan.rung at scilifelab.uu.se>>
Subject: Two bioinformaticians needed to the Clinical Sequencing Facility in Uppsala

Dear All,

The Clinical Sequencing Facility is a new SciLifeLab national facility,
organized jointly by Uppsala University, Uppsala University Hospital and
Science for Life Laboratory. Our mission is to provide clinical genetic tests
for various cancer forms and inherited diseases using state-of-the-art next-
generation sequencing technology. With our team of facility associated
geneticists and medical doctors, we will deliver clinical assessments of the
detected variants, with the aim to truly provide “bench to bedside” services.

We are now looking for two bioinformaticians to our facility: one person to
drive development of production systems and data management, one to drive
development of data analysis pipelines. Those appointed will be expected to
work with clinicians, geneticists, software developers, bioinformaticians and
molecular biologists from our facility, and collaboratively also at other
similar facilities or research teams in Sweden and abroad.

The positions and qualifications are described below. Please see
http://www.uu.se/en/jobs/jobs-detail-page/?positionId=30160 and
http://www.uu.se/en/jobs/jobs-detail-page/?positionId=30157 for more
information and for application forms.

Application deadline is January 31, 2014. Both jobs are full time, two years
to start with and may be extended depending on funding and progress.

-----------------------------------------------------

Bioinformatician (data management)

Work description: To establish the computational infrastructure for our
facility, we are looking to recruit a highly motivated bioinformatician/
software engineer who can drive the development of the production workflow of
our facility. This will include developing server applications, databases and
user interfaces for clinical- and genetic data management, as well as data
transfer protocols for the analysis pipelines in our high performance
computing cluster. One particularly important aspect of the production system
will be the handling of data integrity and security.

Qualifications: Applicants are required to have a M.Sc. degree or higher in a
field related to the position, such as bioinformatics, computer science,
engineering or similar. Further requirements are:

- Documented experience in database design, programming, and maintenance.

- Documented programming skills in Java, C/C++, Python or Perl.

- Documented experience with Linux systems, including server administration
and security.

- Good communication skills and the ability to work both independently and in
collaboration with colleagues in very diverse fields, and the ability to
document work.

- Fluency in English.

Desirable and meritorious in other respects: Experience with bioinformatics in
general, and next-generation sequencing data in particular, is strongly
meriting but not required. Also meriting but not required are knowledge (or an
interest in) genetics, medicine or biology in general, knowledge in computer
hardware, R programming and statistics. Applicants need to have strong work
ethics and an understanding of privacy and security aspects concerning
clinical and genetic data. Ability in Swedish is meriting. A high degree of
importance will be given personal suitability for the position.

----------------------------------------------

Bioinformatician (data analysis)

Work description: To establish the computational infrastructure for our
facility, we are looking to recruit a highly motivated bioinformatician/
scientific programmer who can drive the development of the data analysis
workflow of our facility. This will include building analysis pipelines based
on developing new, and implementing and adapting existing software tools for
next generation sequence data analysis, as well as workflow management tools.
The work will also involve development of bioinformatics content and
annotation for facility databases, in particular concerning clinically
relevant genetic variation data.

Qualifications: Applicants are required to have completed a Ph.D. degree or
higher in a field related to the position, such as bioinformatics,
biotechnology, engineering physics or similar. Further requirements are:

-Documented experience in analysis of next-generation sequencing data.

-Documented experience in bioinformatics. Particularly important are knowledge
in genomics, transcriptomics, genome annotation and a good knowledge of public
resources for bioinformatics data and annotation.

-Documented programming skills in Java, C/C++, Python or Perl, in particular
concerning scientific computing in Linux based HPC environments.

-Documented knowledge in statistics, and programming skills in R.

-Good communication skills and the ability to work both independently and in
collaboration with colleagues in very diverse fields, and the ability to
document work.

-Experience in publishing and presenting research results.

-Fluency in English.

Desirable and meritorious in other respects: Knowledge (or an interest in)
genetics, medicine or biology in general is meriting. Applicants need to have
strong work ethics and an understanding of privacy and security aspects
concerning clinical and genetic data. Ability in Swedish is meriting. A high
degree of importance will be given personal suitability for the position.

You can also contact me directly for more information at
johan.rung at scilifelab.uu.se<mailto:johan.rung at scilifelab.uu.se>.

--------------------------


Many thanks,

Johan Rung
Facility manager, Clinical Sequencing Facility

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